IodoFinder: Machine Learning-Guided Recognition of Iodinated Chemicals in Nontargeted LC-MS/MS Analysis.

Iodinated disinfection byproducts (I-DBPs) pose significant health concerns due to their high toxicity. Current approaches to recognize unknown I-DBPs in mass spectrometry (MS) analysis rely on negative ionization mode, in which the characteristic I fragment can be observed in tandem mass spectra (MS/MS). Still, many I-DBPs ionize exclusively in positive ionization mode, where the I fragment is absent.

Sociodemographic disparities in influenza vaccination among older adults in United States.

Background: Influenza vaccination uptake among United States adults aged 65 years or older remains suboptimal and stagnant. This study aims to evaluate the prevalence of influenza vaccination and examine sociodemographic disparities within a nationally representative sample.

Methods: This study is a cross-sectional study.

The extracytoplasmic sigma factor σ supports biofilm formation and increases biocontrol efficacy in Bacillus velezensis 118.

Plant growth promoting rhizobacteria (PGPR) offer an environmentally friendly and sustainable approach to combat pathogens and enhance crop production. The biocontrol activity of PGPR depends on their ability to colonize plant roots and synthesize antimicrobial compounds that inhibit pathogens. However, the regulatory mechanisms underlying these processes remain unclear.

Improved ChIP Sequencing for H3K27ac Profiling and Super-Enhancer Analysis Assisted by Fluorescence-Activated Sorting of Formalin-Fixed Paraffin-Embedded Tissues.

Archived clinical formalin-fixed paraffin-embedded tissue (FFPE) is valuable for the study of tumor epigenetics. Although protocol of chromatin immunoprecipitation coupled with next generation sequencing (NGS) (ChIP-seq) using FFPE samples has been established, removal of interference signals from non-target cell components in the samples is still needed. In this study, the protocol of ChIP-seq with purified cells from FFPE lymphoid tissue of nodal T follicular helper cell lymphoma, angioimmunoblastic type (nTFHL-AI) after fluorescence-activated cell sorting (FACS) was established and optimized.

[Clinical Features and Prognosis of Patients with Primary Extranodal Diffuse Large B-Cell Lymphoma].

Objective: To investigate the clinical features, gene mutation profile, efficacy and prognostic factors of primary extranodal diffuse large B-cell lymphoma(EN-DLBCL).

Methods: A retrospective analysis was performed for 382 patients with primary EN-DLBCL with complete clinical data who were treated in West China Hospital from January 2013 to January 2023, and their clinical characteristics,gene mutation profile, efficacy and prognostic factors were analyzed.

Results: The median age of the 382 patients with EN-DLBCL was 56(18-89) years old.

Global Lipidomics Reveals the Lipid Composition Heterogeneity of Extracellular Vesicles from Drug-Resistant .

: The rise of drug-resistant strains presents a significant challenge in the treatment of Leishmaniasis, a neglected tropical disease. Extracellular vesicles (EVs) produced by these parasites have gained attention for their role in drug resistance and host-pathogen interactions. : This study developed and applied a novel lipidomics workflow to explore the lipid profiles of EVs from three types of drug-resistant strains compared to a wild-type strain.

Discordant Information on Blinding in Trial Registries and Published Research: A Systematic Review.

Importance: Blinding of individuals involved in randomized clinical trials (RCTs) can be used to protect against performance and biases, but discrepancies in the reporting of methodological features between registered protocols and subsequent trial publications may lead to inconsistencies, thereby reintroducing bias.

Objective: To investigate inconsistency in blinding as reported in trial registries and publications.

Data Sources: An exploratory dataset and a validation dataset were created.

Closing the Knowledge Gap of Post-Acquisition Sample Normalization in Untargeted Metabolomics.

Sample normalization is a crucial step in metabolomics for fair quantitative comparisons. It aims to minimize sample-to-sample variations due to differences in the total metabolite amount. When samples lack a specific metabolic quantity to accurately represent their total metabolite amounts, post-acquisition sample normalization becomes essential.

Early-life gut inflammation drives sex-dependent shifts in the microbiome-endocrine-brain axis.

Despite recent advances in understanding the connection between the gut microbiota and the adult brain, significant knowledge gaps remain regarding how gut inflammation affects brain development. We hypothesized that gut inflammation during early life would negatively affect neurodevelopment by disrupting microbiota communication to the brain. We therefore developed a novel pediatric chemical model of inflammatory bowel disease (IBD), an incurable condition affecting millions of people worldwide.

Achieving synergistic benefits through integrated governance of cultivated cadmium contamination via multistakeholder collaboration.

Rice serves as a vital staple food, but its accumulation of cadmium (Cd) has sparked widespread concerns regarding food safety and ecosystem security. Here, we conducted a seven-year systematic field experiment in the Xiangjiang River Basin of China, where an integrated governance framework (IGF) was established to ensure rice safety. The IGF, tailored to geographical zoning and pollution gradation, includes targeted soil treatments, crop management strategies, and stakeholder engagement.

The dichotomous roles of microbial-modified bile acids 7-oxo-DCA and isoDCA in intestinal tumorigenesis.

The gut microbiota has a significant impact on the development and function of intestinal epithelial cells (IECs) by modifying bile acid (BA) metabolites. Recently, specific gut microbiome-derived BAs, such as 7-oxo-deoxycholic acid (7-oxo-DCA) and isodeoxycholic acid (isoDCA), have been identified to be shifted inversely in colitis and hepatic liver diseases. Although the responsible gut microbes have been identified, metabolites' effects on IECs remain largely unclear.

OsBRW1, a novel blast-resistant gene, coded a NBS-LRR protein to interact with OsSRFP1 to balance rice growth and resistance.

It is urgent to mine novel blast-resistant genes in rice and develop new rice varieties with pyramiding blast-resistant genes. In this study, a new blast-resistant gene, OsBRW1, was screened from a set of rice near-isogenic lines (NILs) with different blast-resistant ability. Under the infection of Magnaporthe oryzae (M.

Constructing HairDB to facilitate exposome research using human hair.

This study introduces HairDB, an online database serving as a comprehensive repository of hair-related chemicals for exposome research. HairDB was created via an integrative approach. It first extracted 4,184 unique hair-related chemicals through text mining of over 34 million PubMed abstracts and 5.

Neuronal lipid droplets play a conserved and sex-biased role in maintaining whole-body energy homeostasis.

Lipids are essential for neuron development and physiology. Yet, the central hubs that coordinate lipid supply and demand in neurons remain unclear. Here, we combine invertebrate and vertebrate models to establish the presence and functional significance of neuronal lipid droplets (LD) .

Y6, a Potential and Efficient Biocontrol Agent in Control of Rice Sheath Blight Caused by .

Rice sheath blight is a serious disease caused by that reduces rice yield. Currently, there is a lack of efficient and environmentally friendly control methods. In this study, we found that () Y6 could significantly inhibit the growth of mycelium in , and its control efficiency against rice sheath blight was 58.

IAA Synthesis Pathway of WL35 and Its Regulatory Gene Expression Levels in Potato ( L.).

Indole-3-acetic acid (IAA), as an important regulator of potato growth, seriously affects the growth and yield of potato. Although many studies have reported that IAA-producing Bacillus can promote plant growth, little research has been conducted on its synthesis pathway and molecular mechanisms. In this study, an IAA-producing strain WL35 was identified as , and its yield was 48.

Galaxamide alleviates cisplatin-induced premature ovarian insufficiency via the PI3K signaling pathway in HeLa tumor-bearing mice.

Background: It is challenging to improve the effects of chemotherapy and reduce its adverse impact on the ovaries. Our previous study suggested that the combination of galaxamide could enhance the antitumor effect of cisplatin (CIS) in HeLa cell xenograft mice. However, their potential effects on ovarian tissues remain unknown.

Nontargeted Analysis of Reactive Nitrogenous Compounds in Suwannee River Standard Reference Materials and Authentic River Water Samples.

Concerns over toxic nitrogenous disinfection byproducts (N-DBPs) necessitate identifying their precursors in source water. Natural organic amino compounds are known precursors to N-DBPs. Three Suwannee River (SR) standard reference materials (SRMs), humic acids (HA), fulvic acids (FA), and natural organic matter (NOM), are commonly used to study DBP formation, but the chemical makeup of amino compounds in SRSRMs remains largely unknown.

BreathXplorer: Processing Online Breathomics Data Generated from Direct Analysis Using High-Resolution Mass Spectrometry.

Nontargeted breath analysis in real time using high-resolution mass spectrometry (HRMS) is a promising approach for high coverage profiling of metabolites in human exhaled breath. However, the information-rich and unique non-Gaussian metabolic signal shapes of real-time HRMS-based data pose a significant challenge for efficient data processing. This work takes a typical real-time HRMS technique as an example, i.

The developmental and evolutionary characteristics of transcription factor binding site clustered regions based on an explainable machine learning model.

Gene expression is temporally and spatially regulated by the interaction of transcription factors (TFs) and cis-regulatory elements (CREs). The uneven distribution of TF binding sites across the genome poses challenges in understanding how this distribution evolves to regulate spatio-temporal gene expression and consequent heritable phenotypic variation. In this study, chromatin accessibility profiles and gene expression profiles were collected from several species including mammals (human, mouse, bovine), fish (zebrafish and medaka), and chicken.

An important role for triglyceride in regulating spermatogenesis.

is a powerful model to study how lipids affect spermatogenesis. Yet, the contribution of neutral lipids, a major lipid group which resides in organelles called lipid droplets (LD), to sperm development is largely unknown. Emerging evidence suggests LD are present in the testis and that loss of neutral lipid- and LD-associated genes causes subfertility; however, key regulators of testis neutral lipids and LD remain unclear.

Erratum: CD31 promotes diffuse large B-cell lymphoma metastasis by upregulating OPN through the AKT pathway and inhibiting CD8+ T cells through the mTOR pathway.

[This corrects the article on p. 2656 in vol. 15, PMID: 37193155.

Capture of endogenous lipids in peptidiscs and effect on protein stability and activity.

Compared to protein-protein and protein-nucleic acid interactions, our knowledge of protein-lipid interactions remains limited. This is primarily due to the inherent insolubility of membrane proteins (MPs) in aqueous solution. The traditional use of detergents to overcome the solubility barrier destabilizes MPs and strips away certain lipids that are increasingly recognized as crucial for protein function.

The anti-cholestatic effects of Franch. alone and combined with (A. Jussieu) T. G. Hartley: dual effects on fecal metabolism and microbial diversity.

Drug dosages and combinations are the main factors that affect the efficacy of pleiotropic traditional Chinese medicine (TCM). Franch. (CF) is a representative TCM with multiple effects and is often combined with (A.